def answer_prediction(paras,question,model,config_file,max_seq_length=384,doc_stride=128,max_query_length=64,max_answer_length=60):
#para_file = 'Input_file.txt'
model_path = model
device = torch.device("cuda" if torch.cuda.is_available() else "cpu")
n_gpu = torch.cuda.device_count()
### Raeding paragraph
## Reading question
# f = open(ques_file, 'r')
# ques = f.read()
# f.close()
## input_data is a list of dictionary which has a paragraph and questions
#para_list = para.split('\n\n')
#print(paras)
input_data = []
i = 1
for i,para in enumerate(paras):
# print(para)
paragraphs = {}
#splits = para.split('\nQuestions:')
paragraphs['id'] = i
paragraphs['text'] = para
paragraphs['ques']= question
input_data.append(paragraphs)
examples = read_paragraphs(input_data,question)
tokenizer = AutoTokenizer.from_pretrained('bert-large-uncased-whole-word-masking-finetuned-squad', do_lower_case=True)
eval_features = convert_examples_to_features(
examples = examples,
tokenizer=tokenizer,
max_seq_length=max_seq_length,
doc_stride=doc_stride,
max_query_length=max_query_length)
all_input_ids = torch.tensor([f.input_ids for f in eval_features], dtype=torch.long)
all_input_mask = torch.tensor([f.input_mask for f in eval_features], dtype=torch.long)
all_segment_ids = torch.tensor([f.segment_ids for f in eval_features], dtype=torch.long)
all_example_index = torch.arange(all_input_ids.size(0), dtype=torch.long)
### Loading Pretrained model for QnA
config = BertConfig(config_file)
model = BertForQuestionAnswering(config)
model.load_state_dict(torch.load(model_path,map_location='cpu'))
model.to(device)
pred_data = TensorDataset(all_input_ids, all_input_mask, all_segment_ids, all_example_index)
# Run prediction for full data
pred_sampler = SequentialSampler(pred_data)
pred_dataloader = DataLoader(pred_data, sampler=pred_sampler, batch_size=10)
predictions = []
for input_ids, input_mask, segment_ids, example_indices in tqdm(pred_dataloader):
model.eval()
input_ids = input_ids.to(device)
input_mask = input_mask.to(device)
segment_ids = segment_ids.to(device)
with torch.no_grad():
batch_start_logits, batch_end_logits = model(input_ids, segment_ids, input_mask)
features=[]
example = []
all_results = []
for i, example_index in enumerate(example_indices):
start_logits = batch_start_logits[i].detach().cpu().tolist()
end_logits = batch_end_logits[i].detach().cpu().tolist()
feature = eval_features[example_index.item()]
unique_id = int(feature.unique_id)
features.append(feature)
all_results.append(RawResult(unique_id=unique_id,
start_logits=start_logits,
end_logits=end_logits))
output = predict(examples, features, all_results,max_answer_length)
predictions.append(output)
### For printing the results ####
final_preds = []
final_paras = []
final_probs = []
final_scores = []
final_ques = []
index = None
for i,example in enumerate(examples):
if index!= example.example_id:
index = example.example_id
#
ques_text = colored(example.question_text, 'blue')
prediction = predictions[math.floor(example.unique_id/12)][example]
prob = predictions[math.floor(example.unique_id/12)]['prob'+str(example)]
final_ques.append(ques_text)
final_preds.append(prediction)
final_paras.append(example.para_text)
final_probs.append(prob)
return final_ques,final_preds,final_paras,final_probs
def main():
parser = argparse.ArgumentParser()
## Required parameters
parser.add_argument(
"--bert_model",
default=None,
type=str,
required=True,
help="Bert pre-trained model selected in the list: bert-base-uncased, "
"bert-large-uncased, bert-base-cased, bert-large-cased, bert-base-multilingual-uncased, "
"bert-base-multilingual-cased, bert-base-chinese.")
parser.add_argument(
"--output_dir",
default=None,
type=str,
required=True,
help=
"The output directory where the model checkpoints and predictions will be written."
)
## Other parameters
parser.add_argument("--train_file",
default=None,
type=str,
help="SQuAD json for training. E.g., train-v1.1.json")
parser.add_argument(
"--predict_file",
default=None,
type=str,
help="SQuAD json for predictions. E.g., dev-v1.1.json or test-v1.1.json"
)
parser.add_argument(
"--max_seq_length",
default=384,
type=int,
help=
"The maximum total input sequence length after WordPiece tokenization. Sequences "
"longer than this will be truncated, and sequences shorter than this will be padded."
)
parser.add_argument(
"--doc_stride",
default=128,
type=int,
help=
"When splitting up a long document into chunks, how much stride to take between chunks."
)
parser.add_argument(
"--max_query_length",
default=64,
type=int,
help=
"The maximum number of tokens for the question. Questions longer than this will "
"be truncated to this length.")
parser.add_argument("--do_train",
action='store_true',
help="Whether to run training.")
parser.add_argument("--do_predict",
action='store_true',
help="Whether to run eval on the dev set.")
parser.add_argument("--train_batch_size",
default=32,
type=int,
help="Total batch size for training.")
parser.add_argument("--predict_batch_size",
default=8,
type=int,
help="Total batch size for predictions.")
parser.add_argument("--learning_rate",
default=5e-5,
type=float,
help="The initial learning rate for Adam.")
parser.add_argument("--num_train_epochs",
default=3.0,
type=float,
help="Total number of training epochs to perform.")
parser.add_argument(
"--warmup_proportion",
default=0.1,
type=float,
help=
"Proportion of training to perform linear learning rate warmup for. E.g., 0.1 = 10%% "
"of training.")
parser.add_argument(
"--n_best_size",
default=20,
type=int,
help=
"The total number of n-best predictions to generate in the nbest_predictions.json "
"output file.")
parser.add_argument(
"--max_answer_length",
default=30,
type=int,
help=
"The maximum length of an answer that can be generated. This is needed because the start "
"and end predictions are not conditioned on one another.")
parser.add_argument(
"--verbose_logging",
action='store_true',
help=
"If true, all of the warnings related to data processing will be printed. "
"A number of warnings are expected for a normal SQuAD evaluation.")
parser.add_argument("--no_cuda",
action='store_true',
help="Whether not to use CUDA when available")
parser.add_argument('--seed',
type=int,
default=42,
help="random seed for initialization")
parser.add_argument(
'--gradient_accumulation_steps',
type=int,
default=1,
help=
"Number of updates steps to accumulate before performing a backward/update pass."
)
parser.add_argument(
"--do_lower_case",
action='store_true',
help=
"Whether to lower case the input text. True for uncased models, False for cased models."
)
parser.add_argument("--local_rank",
type=int,
default=-1,
help="local_rank for distributed training on gpus")
parser.add_argument(
'--fp16',
action='store_true',
help="Whether to use 16-bit float precision instead of 32-bit")
parser.add_argument('--overwrite_output_dir',
action='store_true',
help="Overwrite the content of the output directory")
parser.add_argument(
'--loss_scale',
type=float,
default=0,
help=
"Loss scaling to improve fp16 numeric stability. Only used when fp16 set to True.\n"
"0 (default value): dynamic loss scaling.\n"
"Positive power of 2: static loss scaling value.\n")
parser.add_argument(
'--version_2_with_negative',
action='store_true',
help=
'If true, the SQuAD examples contain some that do not have an answer.')
parser.add_argument(
'--null_score_diff_threshold',
type=float,
default=0.0,
help=
"If null_score - best_non_null is greater than the threshold predict null."
)
parser.add_argument('--server_ip',
type=str,
default='',
help="Can be used for distant debugging.")
parser.add_argument('--server_port',
type=str,
default='',
help="Can be used for distant debugging.")
parser.add_argument('--checkpoint_dir',
type=str,
default='',
help="Checkpoint directory used for prediction.")
parser.add_argument('--checkpoint_filename',
type=str,
default='',
help="Checkpoint binary filename used for prediction.")
parser.add_argument('--output_result_file',
type=str,
default='',
help="Result files will be save in this directory.")
args = parser.parse_args()
print(args)
if args.server_ip and args.server_port:
# Distant debugging - see https://code.visualstudio.com/docs/python/debugging#_attach-to-a-local-script
import ptvsd
print("Waiting for debugger attach")
ptvsd.enable_attach(address=(args.server_ip, args.server_port),
redirect_output=True)
ptvsd.wait_for_attach()
if args.local_rank == -1 or args.no_cuda:
device = torch.device("cuda" if torch.cuda.is_available()
and not args.no_cuda else "cpu")
n_gpu = torch.cuda.device_count()
else:
torch.cuda.set_device(args.local_rank)
device = torch.device("cuda", args.local_rank)
n_gpu = 1
# Initializes the distributed backend which will take care of sychronizing nodes/GPUs
torch.distributed.init_process_group(backend='nccl')
logging.basicConfig(
format='%(asctime)s - %(levelname)s - %(name)s - %(message)s',
datefmt='%m/%d/%Y %H:%M:%S',
level=logging.INFO if args.local_rank in [-1, 0] else logging.WARN)
logger.info(
"device: {} n_gpu: {}, distributed training: {}, 16-bits training: {}".
format(device, n_gpu, bool(args.local_rank != -1), args.fp16))
if args.gradient_accumulation_steps < 1:
raise ValueError(
"Invalid gradient_accumulation_steps parameter: {}, should be >= 1"
.format(args.gradient_accumulation_steps))
args.train_batch_size = args.train_batch_size // args.gradient_accumulation_steps
random.seed(args.seed)
np.random.seed(args.seed)
torch.manual_seed(args.seed)
if n_gpu > 0:
torch.cuda.manual_seed_all(args.seed)
if not args.do_train and not args.do_predict:
raise ValueError(
"At least one of `do_train` or `do_predict` must be True.")
if args.do_train:
if not args.train_file:
raise ValueError(
"If `do_train` is True, then `train_file` must be specified.")
if args.do_predict:
if not args.predict_file:
raise ValueError(
"If `do_predict` is True, then `predict_file` must be specified."
)
if os.path.exists(args.output_dir) and os.listdir(
args.output_dir
) and args.do_train and not args.overwrite_output_dir:
raise ValueError(
"Output directory () already exists and is not empty.")
if not os.path.exists(args.output_dir):
os.makedirs(args.output_dir)
if args.local_rank not in [-1, 0]:
torch.distributed.barrier(
) # Make sure only the first process in distributed training will download model & vocab
tokenizer = BertTokenizer.from_pretrained(args.bert_model,
do_lower_case=args.do_lower_case)
model = BertForQuestionAnswering.from_pretrained(args.bert_model)
if args.local_rank == 0:
torch.distributed.barrier()
if args.fp16:
model.half()
model.to(device)
if args.local_rank != -1:
model = torch.nn.parallel.DistributedDataParallel(
model,
device_ids=[args.local_rank],
output_device=args.local_rank,
find_unused_parameters=True)
elif n_gpu > 1:
model = torch.nn.DataParallel(model)
if args.do_train:
if args.local_rank in [-1, 0]:
tb_writer = SummaryWriter()
# Prepare data loader
logger.info("***** Preparing Data *****")
train_examples = read_thai_qa_examples(input_file=args.train_file,
is_training=True)
cached_train_features_file = args.train_file + '_{0}_{1}_{2}_{3}_cache'.format(
list(filter(None, args.bert_model.split('/'))).pop(),
str(args.max_seq_length), str(args.doc_stride),
str(args.max_query_length))
try:
with open(cached_train_features_file, "rb") as reader:
train_features = pickle.load(reader)
except:
train_features = convert_examples_to_features(
examples=train_examples,
tokenizer=tokenizer,
max_seq_length=args.max_seq_length,
doc_stride=args.doc_stride,
max_query_length=args.max_query_length,
is_training=True)
if args.local_rank == -1 or torch.distributed.get_rank() == 0:
logger.info(" Saving train features into cached file %s",
cached_train_features_file)
with open(cached_train_features_file, "wb") as writer:
pickle.dump(train_features, writer)
all_input_ids = torch.tensor([f.input_ids for f in train_features],
dtype=torch.long)
all_input_mask = torch.tensor([f.input_mask for f in train_features],
dtype=torch.long)
all_segment_ids = torch.tensor([f.segment_ids for f in train_features],
dtype=torch.long)
all_start_positions = torch.tensor(
[f.start_position for f in train_features], dtype=torch.long)
all_end_positions = torch.tensor(
[f.end_position for f in train_features], dtype=torch.long)
train_data = TensorDataset(all_input_ids, all_input_mask,
all_segment_ids, all_start_positions,
all_end_positions)
if args.local_rank == -1:
train_sampler = RandomSampler(train_data)
else:
train_sampler = DistributedSampler(train_data)
train_dataloader = DataLoader(train_data,
sampler=train_sampler,
batch_size=args.train_batch_size)
num_train_optimization_steps = len(
train_dataloader
) // args.gradient_accumulation_steps * args.num_train_epochs
# if args.local_rank != -1:
# num_train_optimization_steps = num_train_optimization_steps // torch.distributed.get_world_size()
logger.info("***** Finished Preparing Data *****")
# Prepare optimizer
param_optimizer = list(model.named_parameters())
# hack to remove pooler, which is not used
# thus it produce None grad that break apex
param_optimizer = [n for n in param_optimizer if 'pooler' not in n[0]]
no_decay = ['bias', 'LayerNorm.bias', 'LayerNorm.weight']
optimizer_grouped_parameters = [{
'params': [
p for n, p in param_optimizer
if not any(nd in n for nd in no_decay)
],
'weight_decay':
0.01
}, {
'params':
[p for n, p in param_optimizer if any(nd in n for nd in no_decay)],
'weight_decay':
0.0
}]
if args.fp16:
try:
from apex.optimizers import FP16_Optimizer
from apex.optimizers import FusedAdam
except ImportError:
raise ImportError(
"Please install apex from https://www.github.com/nvidia/apex to use distributed and fp16 training."
)
optimizer = FusedAdam(optimizer_grouped_parameters,
lr=args.learning_rate,
bias_correction=False,
max_grad_norm=1.0)
if args.loss_scale == 0:
optimizer = FP16_Optimizer(optimizer, dynamic_loss_scale=True)
else:
optimizer = FP16_Optimizer(optimizer,
static_loss_scale=args.loss_scale)
warmup_linear = WarmupLinearSchedule(
warmup=args.warmup_proportion,
t_total=num_train_optimization_steps)
else:
optimizer = BertAdam(optimizer_grouped_parameters,
lr=args.learning_rate,
warmup=args.warmup_proportion,
t_total=num_train_optimization_steps)
global_step = 0
logger.info("***** Running training *****")
logger.info(" Num orig examples = %d", len(train_examples))
logger.info(" Num split examples = %d", len(train_features))
logger.info(" Batch size = %d", args.train_batch_size)
logger.info(" Num steps = %d", num_train_optimization_steps)
model.train()
lowest_training_loss = float('inf')
for epoch in trange(int(args.num_train_epochs), desc="Epoch"):
for step, batch in enumerate(
tqdm(train_dataloader,
desc="Iteration",
disable=args.local_rank not in [-1, 0])):
if n_gpu == 1:
batch = tuple(
t.to(device)
for t in batch) # multi-gpu does scattering it-self
input_ids, input_mask, segment_ids, start_positions, end_positions = batch
loss = model(input_ids, segment_ids, input_mask,
start_positions, end_positions)
if n_gpu > 1:
loss = loss.mean() # mean() to average on multi-gpu.
if args.gradient_accumulation_steps > 1:
loss = loss / args.gradient_accumulation_steps
if args.fp16:
optimizer.backward(loss)
else:
loss.backward()
if (step + 1) % args.gradient_accumulation_steps == 0:
if args.fp16:
# modify learning rate with special warm up BERT uses
# if args.fp16 is False, BertAdam is used and handles this automatically
lr_this_step = args.learning_rate * warmup_linear.get_lr(
global_step, args.warmup_proportion)
for param_group in optimizer.param_groups:
param_group['lr'] = lr_this_step
optimizer.step()
optimizer.zero_grad()
global_step += 1
if args.local_rank in [-1, 0]:
tb_writer.add_scalar('lr',
optimizer.get_lr()[0],
global_step)
tb_writer.add_scalar('loss', loss.item(), global_step)
# Save the best model aka lowest training loss in this case
loss_scalar = loss.item()
if loss_scalar < lowest_training_loss:
lowest_training_loss = loss_scalar
model_to_save = model.module if hasattr(
model, 'module') else model
output_model_file = os.path.join(args.output_dir,
f"best_weight.bin")
torch.save(model_to_save.state_dict(), output_model_file)
# Save the model every epoch
model_to_save = model.module if hasattr(model, 'module') else model
output_model_file = os.path.join(args.output_dir,
f"epoch_{epoch}.bin")
torch.save(model_to_save.state_dict(), output_model_file)
if args.do_train and (args.local_rank == -1
or torch.distributed.get_rank() == 0):
# Save a trained model, configuration and tokenizer
model_to_save = model.module if hasattr(
model, 'module') else model # Only save the model it-self
# If we save using the predefined names, we can load using `from_pretrained`
output_model_file = os.path.join(args.output_dir, WEIGHTS_NAME)
output_config_file = os.path.join(args.output_dir, CONFIG_NAME)
torch.save(model_to_save.state_dict(), output_model_file)
model_to_save.config.to_json_file(output_config_file)
tokenizer.save_vocabulary(args.output_dir)
# Good practice: save your training arguments together with the trained model
output_args_file = os.path.join(args.output_dir, 'training_args.bin')
torch.save(args, output_args_file)
else:
model = BertForQuestionAnswering.from_pretrained(args.bert_model)
model.to(device)
if args.do_predict and (args.local_rank == -1
or torch.distributed.get_rank() == 0):
# Load checkpoint
logger.info(
f'Loading checkpoint from {args.checkpoint_dir}/{args.checkpoint_filename}'
)
config = BertConfig.from_json_file(
f'{args.checkpoint_dir}/config.json')
model = BertForQuestionAnswering(config)
state_dict = torch.load(
f'{args.checkpoint_dir}/{args.checkpoint_filename}')
model.load_state_dict(state_dict)
tokenizer = BertTokenizer(f'{args.checkpoint_dir}/vocab.txt',
do_lower_case=args.do_lower_case)
model.to(device)
eval_examples = read_thai_qa_examples(input_file=args.predict_file,
is_training=False)
eval_features = convert_examples_to_features(
examples=eval_examples,
tokenizer=tokenizer,
max_seq_length=args.max_seq_length,
doc_stride=args.doc_stride,
max_query_length=args.max_query_length,
is_training=False)
logger.info("***** Running predictions *****")
logger.info(" Num orig examples = %d", len(eval_examples))
logger.info(" Num split examples = %d", len(eval_features))
logger.info(" Batch size = %d", args.predict_batch_size)
all_input_ids = torch.tensor([f.input_ids for f in eval_features],
dtype=torch.long)
all_input_mask = torch.tensor([f.input_mask for f in eval_features],
dtype=torch.long)
all_segment_ids = torch.tensor([f.segment_ids for f in eval_features],
dtype=torch.long)
all_example_index = torch.arange(all_input_ids.size(0),
dtype=torch.long)
eval_data = TensorDataset(all_input_ids, all_input_mask,
all_segment_ids, all_example_index)
# Run prediction for full data
eval_sampler = SequentialSampler(eval_data)
eval_dataloader = DataLoader(eval_data,
sampler=eval_sampler,
batch_size=args.predict_batch_size)
model.eval()
all_results = []
logger.info("Start evaluating")
for input_ids, input_mask, segment_ids, example_indices in tqdm(
eval_dataloader,
desc="Evaluating",
disable=args.local_rank not in [-1, 0]):
# if len(all_results) % 1000 == 0:
# logger.info("Processing example: %d" % (len(all_results)))
input_ids = input_ids.to(device)
input_mask = input_mask.to(device)
segment_ids = segment_ids.to(device)
with torch.no_grad():
batch_start_logits, batch_end_logits = model(
input_ids, segment_ids, input_mask)
for i, example_index in enumerate(example_indices):
start_logits = batch_start_logits[i].detach().cpu().tolist()
end_logits = batch_end_logits[i].detach().cpu().tolist()
eval_feature = eval_features[example_index.item()]
unique_id = int(eval_feature.unique_id)
all_results.append(
RawResult(unique_id=unique_id,
start_logits=start_logits,
end_logits=end_logits))
# output_prediction_file = os.path.join(args.output_dir, "predictions.json")
# output_nbest_file = os.path.join(args.output_dir, "nbest_predictions.json")
# output_null_log_odds_file = os.path.join(args.output_dir, "null_odds.json")
write_predictions(eval_examples, eval_features, all_results,
args.n_best_size, args.max_answer_length,
args.do_lower_case, args.output_result_file,
args.verbose_logging, args.null_score_diff_threshold,
tokenizer)
def main():
parser = argparse.ArgumentParser()
## Required parameters
parser.add_argument("--bert_token_model", default=None, type=str, required=True,
help="Bert pre-trained model selected in the list: bert-base-uncased, "
"bert-large-uncased, bert-base-cased, bert-large-cased, bert-base-multilingual-uncased, "
"bert-base-multilingual-cased, bert-base-chinese.")
parser.add_argument("--model_dir", default=None, type=str, required=True,
help="학습된 모델이 저장되어 있는 path")
parser.add_argument("--output_dir", default=None, type=str, required=True,
help="The output directory where the model checkpoints and predictions will be written.")
## Other parameters
parser.add_argument("--predict_file", default=None, type=str,
help="SQuAD json for predictions. E.g., dev-v1.1.json or test-v1.1.json")
parser.add_argument("--max_seq_length", default=384, type=int,
help="The maximum total input sequence length after WordPiece tokenization. Sequences "
"longer than this will be truncated, and sequences shorter than this will be padded.")
parser.add_argument("--doc_stride", default=128, type=int,
help="When splitting up a long document into chunks, how much stride to take between chunks.")
parser.add_argument("--max_query_length", default=64, type=int,
help="The maximum number of tokens for the question. Questions longer than this will "
"be truncated to this length.")
parser.add_argument("--do_predict", action='store_true', help="Whether to run eval on the dev set.")
parser.add_argument("--predict_batch_size", default=8, type=int, help="Total batch size for predictions.")
parser.add_argument("--n_best_size", default=20, type=int,
help="The total number of n-best predictions to generate in the nbest_predictions.json "
"output file.")
parser.add_argument("--max_answer_length", default=30, type=int,
help="The maximum length of an answer that can be generated. This is needed because the start "
"and end predictions are not conditioned on one another.")
parser.add_argument("--verbose_logging", action='store_true',
help="If true, all of the warnings related to data processing will be printed. "
"A number of warnings are expected for a normal SQuAD evaluation.")
parser.add_argument("--no_cuda",
action='store_true',
help="Whether not to use CUDA when available")
parser.add_argument('--seed',
type=int,
default=42,
help="random seed for initialization")
parser.add_argument("--do_lower_case",
action='store_true',
help="Whether to lower case the input text. True for uncased models, False for cased models.")
parser.add_argument("--local_rank",
type=int,
default=-1,
help="local_rank for distributed training on gpus")
parser.add_argument('--fp16',
action='store_true',
help="Whether to use 16-bit float precision instead of 32-bit")
parser.add_argument('--version_2_with_negative',
action='store_true',
help='If true, the SQuAD examples contain some that do not have an answer.')
parser.add_argument('--null_score_diff_threshold',
type=float, default=0.0,
help="If null_score - best_non_null is greater than the threshold predict null.")
parser.add_argument('--server_ip', type=str, default='', help="Can be used for distant debugging.")
parser.add_argument('--server_port', type=str, default='', help="Can be used for distant debugging.")
args = parser.parse_args()
#python run_triviaqa.py --bert_token_model bert-base-uncased --model_dir bert_triviaQA/ --output_dir result/ --predict_file dev-wiki-triviaqa_m.json --no_cuda --do_lower_case --predict_batch_size 40
print(args)
if args.server_ip and args.server_port:
# Distant debugging - see https://code.visualstudio.com/docs/python/debugging#_attach-to-a-local-script
import ptvsd
print("Waiting for debugger attach")
ptvsd.enable_attach(address=(args.server_ip, args.server_port), redirect_output=True)
ptvsd.wait_for_attach()
if args.local_rank == -1 or args.no_cuda:
device = torch.device("cuda" if torch.cuda.is_available() and not args.no_cuda else "cpu")
n_gpu = torch.cuda.device_count()
else:
torch.cuda.set_device(args.local_rank)
device = torch.device("cuda", args.local_rank)
n_gpu = 1
# Initializes the distributed backend which will take care of sychronizing nodes/GPUs
torch.distributed.init_process_group(backend='nccl')
logging.basicConfig(format='%(asctime)s - %(levelname)s - %(name)s - %(message)s',
datefmt='%m/%d/%Y %H:%M:%S',
level=logging.INFO if args.local_rank in [-1, 0] else logging.WARN)
logger.info("device: {} n_gpu: {}, distributed training: {}, 16-bits training: {}".format(
device, n_gpu, bool(args.local_rank != -1), args.fp16))
random.seed(args.seed)
np.random.seed(args.seed)
torch.manual_seed(args.seed)
if n_gpu > 0:
torch.cuda.manual_seed_all(args.seed)
if args.do_predict:
if not args.predict_file:
raise ValueError(
"If `do_predict` is True, then `predict_file` must be specified.")
if os.path.exists(args.output_dir) and os.listdir(args.output_dir):
raise ValueError("Output directory () already exists and is not empty.")
if not os.path.exists(args.output_dir):
os.makedirs(args.output_dir)
tokenizer = BertTokenizer.from_pretrained(args.bert_token_model, do_lower_case=args.do_lower_case)
# Load Pretrained Model
config_path = os.path.join(args.model_dir, CONFIG_NAME)
model_path = os.path.join(args.model_dir, WEIGHTS_NAME)
config = BertConfig(config_path)
model = BertForQuestionAnswering(config)
model.load_state_dict(torch.load(model_path, map_location='cpu'))
if args.fp16:
model.half()
model.to(device)
if args.local_rank != -1:
try:
from apex.parallel import DistributedDataParallel as DDP
except ImportError:
raise ImportError(
"Please install apex from https://www.github.com/nvidia/apex to use distributed and fp16 training.")
model = DDP(model)
elif n_gpu > 1:
model = torch.nn.DataParallel(model)
if args.do_predict and (args.local_rank == -1 or torch.distributed.get_rank() == 0):
eval_examples = read_squad_examples(
input_file=args.predict_file, is_training=False, version_2_with_negative=args.version_2_with_negative)
eval_features = convert_examples_to_features(
examples=eval_examples,
tokenizer=tokenizer,
max_seq_length=args.max_seq_length,
doc_stride=args.doc_stride,
max_query_length=args.max_query_length,
is_training=False)
logger.info("***** Running predictions *****")
logger.info(" Num orig examples = %d", len(eval_examples))
logger.info(" Num split examples = %d", len(eval_features))
logger.info(" Batch size = %d", args.predict_batch_size)
all_input_ids = torch.tensor([f.input_ids for f in eval_features], dtype=torch.long)
all_input_mask = torch.tensor([f.input_mask for f in eval_features], dtype=torch.long)
all_segment_ids = torch.tensor([f.segment_ids for f in eval_features], dtype=torch.long)
all_example_index = torch.arange(all_input_ids.size(0), dtype=torch.long)
eval_data = TensorDataset(all_input_ids, all_input_mask, all_segment_ids, all_example_index)
# Run prediction for full data
eval_sampler = SequentialSampler(eval_data)
eval_dataloader = DataLoader(eval_data, sampler=eval_sampler, batch_size=args.predict_batch_size)
model.eval()
all_results = []
logger.info("Start evaluating")
for input_ids, input_mask, segment_ids, example_indices in tqdm(eval_dataloader, desc="Evaluating",
disable=args.local_rank not in [-1, 0]):
if len(all_results) % 1000 == 0:
logger.info("Processing example: %d" % (len(all_results)))
input_ids = input_ids.to(device)
input_mask = input_mask.to(device)
segment_ids = segment_ids.to(device)
with torch.no_grad():
batch_start_logits, batch_end_logits = model(input_ids, segment_ids, input_mask)
for i, example_index in enumerate(example_indices):
start_logits = batch_start_logits[i].detach().cpu().tolist()
end_logits = batch_end_logits[i].detach().cpu().tolist()
eval_feature = eval_features[example_index.item()]
unique_id = int(eval_feature.unique_id)
all_results.append(RawResult(unique_id=unique_id,
start_logits=start_logits,
end_logits=end_logits))
output_prediction_file = os.path.join(args.output_dir, "predictions.json")
output_nbest_file = os.path.join(args.output_dir, "nbest_predictions.json")
output_null_log_odds_file = os.path.join(args.output_dir, "null_odds.json")
write_predictions(eval_examples, eval_features, all_results,
args.n_best_size, args.max_answer_length,
args.do_lower_case, output_prediction_file,
output_nbest_file, output_null_log_odds_file, args.verbose_logging,
args.version_2_with_negative, args.null_score_diff_threshold)
def main():
parser = argparse.ArgumentParser()
## Required parameters
parser.add_argument(
"--bert_model",
default=None,
type=str,
required=True,
help="Bert pre-trained model selected in the list: bert-base-uncased, "
"bert-large-uncased, bert-base-cased, bert-large-cased, bert-base-multilingual-uncased, "
"bert-base-multilingual-cased, bert-base-chinese.")
parser.add_argument(
"--output_dir",
default=None,
type=str,
required=True,
help=
"The output directory where the model checkpoints and predictions will be written."
)
## Other parameters
parser.add_argument("--model", default=None, type=str)
parser.add_argument("--train_file",
default=None,
type=str,
help="SQuAD json for training. E.g., train-v1.1.json")
parser.add_argument(
"--max_seq_length",
default=384,
type=int,
help=
"The maximum total input sequence length after WordPiece tokenization. Sequences "
"longer than this will be truncated, and sequences shorter than this will be padded."
)
parser.add_argument(
"--doc_stride",
default=128,
type=int,
help=
"When splitting up a long document into chunks, how much stride to take between chunks."
)
parser.add_argument(
"--max_query_length",
default=64,
type=int,
help=
"The maximum number of tokens for the question. Questions longer than this will "
"be truncated to this length.")
parser.add_argument("--do_train",
action='store_true',
help="Whether to run training.")
parser.add_argument("--do_predict",
action='store_true',
help="Whether to run eval on the dev set.")
parser.add_argument("--train_batch_size",
default=32,
type=int,
help="Total batch size for training.")
parser.add_argument("--predict_batch_size",
default=8,
type=int,
help="Total batch size for predictions.")
parser.add_argument("--learning_rate",
default=5e-5,
type=float,
help="The initial learning rate for Adam.")
parser.add_argument("--num_train_epochs",
default=3.0,
type=float,
help="Total number of training epochs to perform.")
parser.add_argument(
"--warmup_proportion",
default=0.1,
type=float,
help=
"Proportion of training to perform linear learning rate warmup for. E.g., 0.1 = 10%% "
"of training.")
parser.add_argument(
"--n_best_size",
default=20,
type=int,
help=
"The total number of n-best predictions to generate in the nbest_predictions.json "
"output file.")
parser.add_argument(
"--max_answer_length",
default=30,
type=int,
help=
"The maximum length of an answer that can be generated. This is needed because the start "
"and end predictions are not conditioned on one another.")
parser.add_argument(
"--verbose_logging",
action='store_true',
help=
"If true, all of the warnings related to data processing will be printed. "
"A number of warnings are expected for a normal SQuAD evaluation.")
parser.add_argument("--no_cuda",
action='store_true',
help="Whether not to use CUDA when available")
parser.add_argument('--seed',
type=int,
default=42,
help="random seed for initialization")
parser.add_argument(
'--gradient_accumulation_steps',
type=int,
default=1,
help=
"Number of updates steps to accumulate before performing a backward/update pass."
)
parser.add_argument(
"--do_lower_case",
action='store_true',
help=
"Whether to lower case the input text. True for uncased models, False for cased models."
)
parser.add_argument("--local_rank",
type=int,
default=-1,
help="local_rank for distributed training on gpus")
parser.add_argument(
'--fp16',
action='store_true',
help="Whether to use 16-bit float precision instead of 32-bit")
parser.add_argument(
'--loss_scale',
type=float,
default=0,
help=
"Loss scaling to improve fp16 numeric stability. Only used when fp16 set to True.\n"
"0 (default value): dynamic loss scaling.\n"
"Positive power of 2: static loss scaling value.\n")
parser.add_argument(
'--version_2_with_negative',
action='store_true',
help=
'If true, the SQuAD examples contain some that do not have an answer.')
parser.add_argument(
'--null_score_diff_threshold',
type=float,
default=0.0,
help=
"If null_score - best_non_null is greater than the threshold predict null."
)
parser.add_argument("--config_file", default=None, type=str)
args = parser.parse_args()
if args.local_rank == -1 or args.no_cuda:
device = torch.device("cuda" if torch.cuda.is_available()
and not args.no_cuda else "cpu")
n_gpu = torch.cuda.device_count()
else:
torch.cuda.set_device(args.local_rank)
device = torch.device("cuda", args.local_rank)
n_gpu = 1
# Initializes the distributed backend which will take care of sychronizing nodes/GPUs
torch.distributed.init_process_group(backend='nccl')
random.seed(args.seed)
np.random.seed(args.seed)
torch.manual_seed(args.seed)
if n_gpu > 0:
torch.cuda.manual_seed_all(args.seed)
if os.path.exists(args.output_dir) and os.listdir(
args.output_dir) and args.do_train:
raise ValueError(
"Output directory () already exists and is not empty.")
if not os.path.exists(args.output_dir):
os.makedirs(args.output_dir)
tokenizer = BertTokenizer.from_pretrained(args.bert_model,
do_lower_case=args.do_lower_case)
config = BertConfig(args.config_file)
model = BertForQuestionAnswering(config)
model.load_state_dict(torch.load(args.model, map_location='cpu'))
model.to(device)
if args.do_predict and (args.local_rank == -1
or torch.distributed.get_rank() == 0):
eval_examples = read_squad_examples(
is_training=False,
version_2_with_negative=args.version_2_with_negative)
eval_features = convert_examples_to_features(
examples=eval_examples,
tokenizer=tokenizer,
max_seq_length=args.max_seq_length,
doc_stride=args.doc_stride,
max_query_length=args.max_query_length,
is_training=False)
logger.info("***** Running predictions *****")
logger.info(" Num orig examples = %d", len(eval_examples))
logger.info(" Num split examples = %d", len(eval_features))
logger.info(" Batch size = %d", args.predict_batch_size)
all_input_ids = torch.tensor([f.input_ids for f in eval_features],
dtype=torch.long)
all_input_mask = torch.tensor([f.input_mask for f in eval_features],
dtype=torch.long)
all_segment_ids = torch.tensor([f.segment_ids for f in eval_features],
dtype=torch.long)
all_example_index = torch.arange(all_input_ids.size(0),
dtype=torch.long)
eval_data = TensorDataset(all_input_ids, all_input_mask,
all_segment_ids, all_example_index)
# Run prediction for full data
eval_sampler = SequentialSampler(eval_data)
eval_dataloader = DataLoader(eval_data,
sampler=eval_sampler,
batch_size=args.predict_batch_size)
model.eval()
all_results = []
logger.info("Start evaluating")
for input_ids, input_mask, segment_ids, example_indices in tqdm(
eval_dataloader,
desc="Evaluating",
disable=args.local_rank not in [-1, 0]):
if len(all_results) % 1000 == 0:
logger.info("Processing example: %d" % (len(all_results)))
input_ids = input_ids.to(device)
input_mask = input_mask.to(device)
segment_ids = segment_ids.to(device)
with torch.no_grad():
batch_start_logits, batch_end_logits = model(
input_ids, segment_ids, input_mask)
for i, example_index in enumerate(example_indices):
start_logits = batch_start_logits[i].detach().cpu().tolist()
end_logits = batch_end_logits[i].detach().cpu().tolist()
eval_feature = eval_features[example_index.item()]
unique_id = int(eval_feature.unique_id)
all_results.append(
RawResult(unique_id=unique_id,
start_logits=start_logits,
end_logits=end_logits))
output_prediction_file = os.path.join(args.output_dir,
"predictions.json")
output_nbest_file = os.path.join(args.output_dir,
"nbest_predictions.json")
output_null_log_odds_file = os.path.join(args.output_dir,
"null_odds.json")
write_predictions(eval_examples, eval_features, all_results,
args.n_best_size, args.max_answer_length,
args.do_lower_case, output_prediction_file,
output_nbest_file, output_null_log_odds_file,
args.verbose_logging, args.version_2_with_negative,
args.null_score_diff_threshold)
class Bert(object):
def __init__(self):
# Hyperparameters
self.BERT_MODEL = "bert-base-uncased"
self.OUTPUT_DIR = "bert-model"
self.TRAIN_FILE = ""
self.PREDICT_FILE = "squad/test-pred.json"
self.MAX_SEQ_LENGTH = 384
self.DOC_STRIDE = 128
self.MAX_QUERY_LENGTH = 64
self.DO_TRAIN = False
self.DO_PREDICT = True
self.TRAIN_BATCH_SIZE = 12
self.PREDICT_BATCH_SIZE = 8
self.LEARNING_RATE = 3e-5
self.NUM_TRAIN_EPOCHS = 2.0
self.WARMUP_PROPORTION = 0.1
self.N_BEST_SIZE = 20
self.MAX_ANSWER_LENGTH = 30
self.VERBOSE_LOGGING = False
self.NO_CUDA = False
self.SEED = 42
self.GRADIENT_ACCUMULATION_STEPS = 1
self.DO_LOWER_CASE = True
self.LOCAL_RANK = -1
self.FP16 = False
self.LOSS_SCALE = 0
self.VERSION_2_WITH_NEGATIVE = True
self.NULL_SCORE_DIFF_THRESHOLD = 0.0
if self.LOCAL_RANK == -1 or self.NO_CUDA:
self.device = torch.device("cuda" if torch.cuda.is_available()
and not self.NO_CUDA else "cpu")
n_gpu = torch.cuda.device_count()
else:
torch.cuda.set_device(self.LOCAL_RANK)
self.device = torch.device("cuda", self.LOCAL_RANK)
n_gpu = 1
# Initializes the distributed backend which will take care of sychronizing nodes/GPUs
torch.distributed.init_process_group(backend='nccl')
logger.info(
"device: {} n_gpu: {}, distributed training: {}, 16-bits training: {}"
.format(self.device, n_gpu, bool(self.LOCAL_RANK != -1),
self.FP16))
if self.GRADIENT_ACCUMULATION_STEPS < 1:
raise ValueError(
"Invalid gradient_accumulation_steps parameter: {}, should be >= 1"
.format(self.GRADIENT_ACCUMULATION_STEPS))
self.TRAIN_BATCH_SIZE = self.TRAIN_BATCH_SIZE // self.GRADIENT_ACCUMULATION_STEPS
random.seed(self.SEED)
np.random.seed(self.SEED)
torch.manual_seed(self.SEED)
if n_gpu > 0:
torch.cuda.manual_seed_all(self.SEED)
if not self.DO_TRAIN and not self.DO_PREDICT:
raise ValueError(
"At least one of `do_train` or `do_predict` must be True.")
if self.DO_TRAIN:
if not self.TRAIN_FILE:
raise ValueError(
"If `do_train` is True, then `train_file` must be specified."
)
if self.DO_PREDICT:
if not self.PREDICT_FILE:
raise ValueError(
"If `do_predict` is True, then `predict_file` must be specified."
)
if os.path.exists(self.OUTPUT_DIR) and os.listdir(
self.OUTPUT_DIR) and self.DO_TRAIN:
raise ValueError(
"Output directory () already exists and is not empty.")
if not os.path.exists(self.OUTPUT_DIR):
os.makedirs(self.OUTPUT_DIR)
self.tokenizer = BertTokenizer.from_pretrained(
self.BERT_MODEL, do_lower_case=self.DO_LOWER_CASE)
train_examples = None
num_train_optimization_steps = None
# Prepare model
self.model = BertForQuestionAnswering.from_pretrained(
self.BERT_MODEL,
cache_dir=os.path.join(str(PYTORCH_PRETRAINED_BERT_CACHE),
'distributed_{}'.format(self.LOCAL_RANK)))
if self.FP16:
self.model.half()
self.model.to(self.device)
if self.LOCAL_RANK != -1:
try:
from apex.parallel import DistributedDataParallel as DDP
except ImportError:
raise ImportError(
"Please install apex from https://www.github.com/nvidia/apex to use distributed and fp16 training."
)
self.model = DDP(self.model)
elif n_gpu > 1:
self.model = torch.nn.DataParallel(self.model)
# Prepare optimizer
param_optimizer = list(self.model.named_parameters())
# hack to remove pooler, which is not used
# thus it produce None grad that break apex
param_optimizer = [n for n in param_optimizer if 'pooler' not in n[0]]
no_decay = ['bias', 'LayerNorm.bias', 'LayerNorm.weight']
optimizer_grouped_parameters = [{
'params': [
p for n, p in param_optimizer
if not any(nd in n for nd in no_decay)
],
'weight_decay':
0.01
}, {
'params':
[p for n, p in param_optimizer if any(nd in n for nd in no_decay)],
'weight_decay':
0.0
}]
if self.FP16:
try:
from apex.optimizers import FP16_Optimizer
from apex.optimizers import FusedAdam
except ImportError:
raise ImportError(
"Please install apex from https://www.github.com/nvidia/apex to use distributed and fp16 training."
)
optimizer = FusedAdam(optimizer_grouped_parameters,
lr=self.LEARNING_RATE,
bias_correction=False,
max_grad_norm=1.0)
if self.LOSS_SCALE == 0:
optimizer = self.FP16_Optimizer(optimizer,
dynamic_loss_scale=True)
else:
optimizer = self.FP16_Optimizer(
optimizer, static_loss_scale=self.LOSS_SCALE)
else:
optimizer = BertAdam(optimizer_grouped_parameters,
lr=self.LEARNING_RATE,
warmup=self.WARMUP_PROPORTION,
t_total=num_train_optimization_steps)
# self.model = BertForQuestionAnswering.from_pretrained(self.BERT_MODEL)
output_model_file = os.path.join(self.OUTPUT_DIR, WEIGHTS_NAME)
output_config_file = os.path.join(self.OUTPUT_DIR, CONFIG_NAME)
# Load a trained model and config that you have fine-tuned
config = BertConfig(output_config_file)
self.model = BertForQuestionAnswering(config)
if torch.cuda.is_available():
self.model.load_state_dict(torch.load(output_model_file))
else:
self.model.load_state_dict(
torch.load(output_model_file, map_location='cpu'))
self.model.to(self.device)
print('\n*** QA MODULE READY [1/3] ***\n')
def read_squad_examples(self, input_file, is_training,
version_2_with_negative):
"""Read a SQuAD json file into a list of SquadExample."""
with open(input_file, "r", encoding='utf-8') as reader:
input_data = json.load(reader)["data"]
def is_whitespace(c):
if c == " " or c == "\t" or c == "\r" or c == "\n" or ord(
c) == 0x202F:
return True
return False
examples = []
for entry in input_data:
for paragraph in entry["paragraphs"]:
paragraph_text = paragraph["context"]
doc_tokens = []
char_to_word_offset = []
prev_is_whitespace = True
for c in paragraph_text:
if is_whitespace(c):
prev_is_whitespace = True
else:
if prev_is_whitespace:
doc_tokens.append(c)
else:
doc_tokens[-1] += c
prev_is_whitespace = False
char_to_word_offset.append(len(doc_tokens) - 1)
for qa in paragraph["qas"]:
qas_id = qa["id"]
question_text = qa["question"]
start_position = None
end_position = None
orig_answer_text = None
is_impossible = False
if is_training:
if version_2_with_negative:
is_impossible = qa["is_impossible"]
if (len(qa["answers"]) != 1) and (not is_impossible):
raise ValueError(
"For training, each question should have exactly 1 answer."
)
if not is_impossible:
answer = qa["answers"][0]
orig_answer_text = answer["text"]
answer_offset = answer["answer_start"]
answer_length = len(orig_answer_text)
start_position = char_to_word_offset[answer_offset]
end_position = char_to_word_offset[answer_offset +
answer_length -
1]
# Only add answers where the text can be exactly recovered from the
# document. If this CAN'T happen it's likely due to weird Unicode
# stuff so we will just skip the example.
#
# Note that this means for training mode, every example is NOT
# guaranteed to be preserved.
actual_text = " ".join(
doc_tokens[start_position:(end_position + 1)])
cleaned_answer_text = " ".join(
whitespace_tokenize(orig_answer_text))
if actual_text.find(cleaned_answer_text) == -1:
logger.warning(
"Could not find answer: '%s' vs. '%s'",
actual_text, cleaned_answer_text)
continue
else:
start_position = -1
end_position = -1
orig_answer_text = ""
example = SquadExample(qas_id=qas_id,
question_text=question_text,
doc_tokens=doc_tokens,
orig_answer_text=orig_answer_text,
start_position=start_position,
end_position=end_position,
is_impossible=is_impossible)
examples.append(example)
return examples
def convert_examples_to_features(self, examples, tokenizer, max_seq_length,
doc_stride, max_query_length,
is_training):
"""Loads a data file into a list of `InputBatch`s."""
unique_id = 1000000000
features = []
for (example_index, example) in enumerate(examples):
query_tokens = tokenizer.tokenize(example.question_text)
if len(query_tokens) > max_query_length:
query_tokens = query_tokens[0:max_query_length]
tok_to_orig_index = []
orig_to_tok_index = []
all_doc_tokens = []
for (i, token) in enumerate(example.doc_tokens):
orig_to_tok_index.append(len(all_doc_tokens))
sub_tokens = tokenizer.tokenize(token)
for sub_token in sub_tokens:
tok_to_orig_index.append(i)
all_doc_tokens.append(sub_token)
tok_start_position = None
tok_end_position = None
if is_training and example.is_impossible:
tok_start_position = -1
tok_end_position = -1
if is_training and not example.is_impossible:
tok_start_position = orig_to_tok_index[example.start_position]
if example.end_position < len(example.doc_tokens) - 1:
tok_end_position = orig_to_tok_index[example.end_position +
1] - 1
else:
tok_end_position = len(all_doc_tokens) - 1
(tok_start_position,
tok_end_position) = self._improve_answer_span(
all_doc_tokens, tok_start_position, tok_end_position,
tokenizer, example.orig_answer_text)
# The -3 accounts for [CLS], [SEP] and [SEP]
max_tokens_for_doc = max_seq_length - len(query_tokens) - 3
# We can have documents that are longer than the maximum sequence length.
# To deal with this we do a sliding window approach, where we take chunks
# of the up to our max length with a stride of `doc_stride`.
_DocSpan = collections.namedtuple( # pylint: disable=invalid-name
"DocSpan", ["start", "length"])
doc_spans = []
start_offset = 0
while start_offset < len(all_doc_tokens):
length = len(all_doc_tokens) - start_offset
if length > max_tokens_for_doc:
length = max_tokens_for_doc
doc_spans.append(_DocSpan(start=start_offset, length=length))
if start_offset + length == len(all_doc_tokens):
break
start_offset += min(length, doc_stride)
for (doc_span_index, doc_span) in enumerate(doc_spans):
tokens = []
token_to_orig_map = {}
token_is_max_context = {}
segment_ids = []
tokens.append("[CLS]")
segment_ids.append(0)
for token in query_tokens:
tokens.append(token)
segment_ids.append(0)
tokens.append("[SEP]")
segment_ids.append(0)
for i in range(doc_span.length):
split_token_index = doc_span.start + i
token_to_orig_map[len(
tokens)] = tok_to_orig_index[split_token_index]
is_max_context = self._check_is_max_context(
doc_spans, doc_span_index, split_token_index)
token_is_max_context[len(tokens)] = is_max_context
tokens.append(all_doc_tokens[split_token_index])
segment_ids.append(1)
tokens.append("[SEP]")
segment_ids.append(1)
input_ids = tokenizer.convert_tokens_to_ids(tokens)
# The mask has 1 for real tokens and 0 for padding tokens. Only real
# tokens are attended to.
input_mask = [1] * len(input_ids)
# Zero-pad up to the sequence length.
while len(input_ids) < max_seq_length:
input_ids.append(0)
input_mask.append(0)
segment_ids.append(0)
assert len(input_ids) == max_seq_length
assert len(input_mask) == max_seq_length
assert len(segment_ids) == max_seq_length
start_position = None
end_position = None
if is_training and not example.is_impossible:
# For training, if our document chunk does not contain an annotation
# we throw it out, since there is nothing to predict.
doc_start = doc_span.start
doc_end = doc_span.start + doc_span.length - 1
out_of_span = False
if not (tok_start_position >= doc_start
and tok_end_position <= doc_end):
out_of_span = True
if out_of_span:
start_position = 0
end_position = 0
else:
doc_offset = len(query_tokens) + 2
start_position = tok_start_position - doc_start + doc_offset
end_position = tok_end_position - doc_start + doc_offset
if is_training and example.is_impossible:
start_position = 0
end_position = 0
features.append(
InputFeatures(unique_id=unique_id,
example_index=example_index,
doc_span_index=doc_span_index,
tokens=tokens,
token_to_orig_map=token_to_orig_map,
token_is_max_context=token_is_max_context,
input_ids=input_ids,
input_mask=input_mask,
segment_ids=segment_ids,
start_position=start_position,
end_position=end_position,
is_impossible=example.is_impossible))
unique_id += 1
return features
def _improve_answer_span(self, doc_tokens, input_start, input_end,
tokenizer, orig_answer_text):
"""Returns tokenized answer spans that better match the annotated answer."""
# The SQuAD annotations are character based. We first project them to
# whitespace-tokenized words. But then after WordPiece tokenization, we can
# often find a "better match". For example:
#
# Question: What year was John Smith born?
# Context: The leader was John Smith (1895-1943).
# Answer: 1895
#
# The original whitespace-tokenized answer will be "(1895-1943).". However
# after tokenization, our tokens will be "( 1895 - 1943 ) .". So we can match
# the exact answer, 1895.
#
# However, this is not always possible. Consider the following:
#
# Question: What country is the top exporter of electornics?
# Context: The Japanese electronics industry is the lagest in the world.
# Answer: Japan
#
# In this case, the annotator chose "Japan" as a character sub-span of
# the word "Japanese". Since our WordPiece tokenizer does not split
# "Japanese", we just use "Japanese" as the annotation. This is fairly rare
# in SQuAD, but does happen.
tok_answer_text = " ".join(tokenizer.tokenize(orig_answer_text))
for new_start in range(input_start, input_end + 1):
for new_end in range(input_end, new_start - 1, -1):
text_span = " ".join(doc_tokens[new_start:(new_end + 1)])
if text_span == tok_answer_text:
return (new_start, new_end)
return (input_start, input_end)
def _check_is_max_context(self, doc_spans, cur_span_index, position):
"""Check if this is the 'max context' doc span for the token."""
# Because of the sliding window approach taken to scoring documents, a single
# token can appear in multiple documents. E.g.
# Doc: the man went to the store and bought a gallon of milk
# Span A: the man went to the
# Span B: to the store and bought
# Span C: and bought a gallon of
# ...
#
# Now the word 'bought' will have two scores from spans B and C. We only
# want to consider the score with "maximum context", which we define as
# the *minimum* of its left and right context (the *sum* of left and
# right context will always be the same, of course).
#
# In the example the maximum context for 'bought' would be span C since
# it has 1 left context and 3 right context, while span B has 4 left context
# and 0 right context.
best_score = None
best_span_index = None
for (span_index, doc_span) in enumerate(doc_spans):
end = doc_span.start + doc_span.length - 1
if position < doc_span.start:
continue
if position > end:
continue
num_left_context = position - doc_span.start
num_right_context = end - position
score = min(num_left_context,
num_right_context) + 0.01 * doc_span.length
if best_score is None or score > best_score:
best_score = score
best_span_index = span_index
return cur_span_index == best_span_index
RawResult = collections.namedtuple(
"RawResult", ["unique_id", "start_logits", "end_logits"])
def write_predictions(self, all_examples, all_features, all_results,
n_best_size, max_answer_length, do_lower_case,
output_prediction_file, output_nbest_file,
output_null_log_odds_file, verbose_logging,
version_2_with_negative, null_score_diff_threshold):
example_index_to_features = collections.defaultdict(list)
for feature in all_features:
example_index_to_features[feature.example_index].append(feature)
unique_id_to_result = {}
for result in all_results:
unique_id_to_result[result.unique_id] = result
_PrelimPrediction = collections.namedtuple( # pylint: disable=invalid-name
"PrelimPrediction", [
"feature_index", "start_index", "end_index", "start_logit",
"end_logit"
])
all_predictions = collections.OrderedDict()
all_nbest_json = collections.OrderedDict()
scores_diff_json = collections.OrderedDict()
for (example_index, example) in enumerate(all_examples):
features = example_index_to_features[example_index]
prelim_predictions = []
# keep track of the minimum score of null start+end of position 0
score_null = 1000000 # large and positive
min_null_feature_index = 0 # the paragraph slice with min null score
null_start_logit = 0 # the start logit at the slice with min null score
null_end_logit = 0 # the end logit at the slice with min null score
for (feature_index, feature) in enumerate(features):
result = unique_id_to_result[feature.unique_id]
start_indexes = self._get_best_indexes(result.start_logits,
n_best_size)
end_indexes = self._get_best_indexes(result.end_logits,
n_best_size)
# if we could have irrelevant answers, get the min score of irrelevant
if version_2_with_negative:
feature_null_score = result.start_logits[
0] + result.end_logits[0]
if feature_null_score < score_null:
score_null = feature_null_score
min_null_feature_index = feature_index
null_start_logit = result.start_logits[0]
null_end_logit = result.end_logits[0]
for start_index in start_indexes:
for end_index in end_indexes:
# We could hypothetically create invalid predictions, e.g., predict
# that the start of the span is in the question. We throw out all
# invalid predictions.
if start_index >= len(feature.tokens):
continue
if end_index >= len(feature.tokens):
continue
if start_index not in feature.token_to_orig_map:
continue
if end_index not in feature.token_to_orig_map:
continue
if not feature.token_is_max_context.get(
start_index, False):
continue
if end_index < start_index:
continue
length = end_index - start_index + 1
if length > max_answer_length:
continue
prelim_predictions.append(
_PrelimPrediction(
feature_index=feature_index,
start_index=start_index,
end_index=end_index,
start_logit=result.start_logits[start_index],
end_logit=result.end_logits[end_index]))
if version_2_with_negative:
prelim_predictions.append(
_PrelimPrediction(feature_index=min_null_feature_index,
start_index=0,
end_index=0,
start_logit=null_start_logit,
end_logit=null_end_logit))
prelim_predictions = sorted(prelim_predictions,
key=lambda x:
(x.start_logit + x.end_logit),
reverse=True)
_NbestPrediction = collections.namedtuple( # pylint: disable=invalid-name
"NbestPrediction", ["text", "start_logit", "end_logit"])
seen_predictions = {}
nbest = []
for pred in prelim_predictions:
if len(nbest) >= n_best_size:
break
feature = features[pred.feature_index]
if pred.start_index > 0: # this is a non-null prediction
tok_tokens = feature.tokens[pred.start_index:(
pred.end_index + 1)]
orig_doc_start = feature.token_to_orig_map[
pred.start_index]
orig_doc_end = feature.token_to_orig_map[pred.end_index]
orig_tokens = example.doc_tokens[orig_doc_start:(
orig_doc_end + 1)]
tok_text = " ".join(tok_tokens)
# De-tokenize WordPieces that have been split off.
tok_text = tok_text.replace(" ##", "")
tok_text = tok_text.replace("##", "")
# Clean whitespace
tok_text = tok_text.strip()
tok_text = " ".join(tok_text.split())
orig_text = " ".join(orig_tokens)
final_text = self.get_final_text(tok_text, orig_text,
do_lower_case,
verbose_logging)
if final_text in seen_predictions:
continue
seen_predictions[final_text] = True
else:
final_text = ""
seen_predictions[final_text] = True
nbest.append(
_NbestPrediction(text=final_text,
start_logit=pred.start_logit,
end_logit=pred.end_logit))
# if we didn't include the empty option in the n-best, include it
if version_2_with_negative:
if "" not in seen_predictions:
nbest.append(
_NbestPrediction(text="",
start_logit=null_start_logit,
end_logit=null_end_logit))
# In very rare edge cases we could only have single null prediction.
# So we just create a nonce prediction in this case to avoid failure.
if len(nbest) == 1:
nbest.insert(
0,
_NbestPrediction(text="empty",
start_logit=0.0,
end_logit=0.0))
# In very rare edge cases we could have no valid predictions. So we
# just create a nonce prediction in this case to avoid failure.
if not nbest:
nbest.append(
_NbestPrediction(text="empty",
start_logit=0.0,
end_logit=0.0))
assert len(nbest) >= 1
total_scores = []
best_non_null_entry = None
for entry in nbest:
total_scores.append(entry.start_logit + entry.end_logit)
if not best_non_null_entry:
if entry.text:
best_non_null_entry = entry
probs = self._compute_softmax(total_scores)
nbest_json = []
for (i, entry) in enumerate(nbest):
output = collections.OrderedDict()
output["text"] = entry.text
output["probability"] = probs[i]
output["start_logit"] = entry.start_logit
output["end_logit"] = entry.end_logit
nbest_json.append(output)
assert len(nbest_json) >= 1
if not version_2_with_negative:
all_predictions[example.qas_id] = nbest_json[0]["text"]
else:
# predict "" iff the null score - the score of best non-null > threshold
score_diff = score_null - best_non_null_entry.start_logit - (
best_non_null_entry.end_logit)
scores_diff_json[example.qas_id] = score_diff
if score_diff > null_score_diff_threshold:
all_predictions[example.qas_id] = ""
else:
all_predictions[example.qas_id] = best_non_null_entry.text
all_nbest_json[example.qas_id] = nbest_json
'''
with open(output_prediction_file, "w") as writer:
writer.write(json.dumps(all_predictions, indent=4) + "\n")
with open(output_nbest_file, "w") as writer:
writer.write(json.dumps(all_nbest_json, indent=4) + "\n")
if version_2_with_negative:
with open(output_null_log_odds_file, "w") as writer:
writer.write(json.dumps(scores_diff_json, indent=4) + "\n")
'''
return all_predictions[example.qas_id]
def get_final_text(self,
pred_text,
orig_text,
do_lower_case,
verbose_logging=False):
"""Project the tokenized prediction back to the original text."""
# When we created the data, we kept track of the alignment between original
# (whitespace tokenized) tokens and our WordPiece tokenized tokens. So
# now `orig_text` contains the span of our original text corresponding to the
# span that we predicted.
#
# However, `orig_text` may contain extra characters that we don't want in
# our prediction.
#
# For example, let's say:
# pred_text = steve smith
# orig_text = Steve Smith's
#
# We don't want to return `orig_text` because it contains the extra "'s".
#
# We don't want to return `pred_text` because it's already been normalized
# (the SQuAD eval script also does punctuation stripping/lower casing but
# our tokenizer does additional normalization like stripping accent
# characters).
#
# What we really want to return is "Steve Smith".
#
# Therefore, we have to apply a semi-complicated alignment heuristic between
# `pred_text` and `orig_text` to get a character-to-character alignment. This
# can fail in certain cases in which case we just return `orig_text`.
def _strip_spaces(text):
ns_chars = []
ns_to_s_map = collections.OrderedDict()
for (i, c) in enumerate(text):
if c == " ":
continue
ns_to_s_map[len(ns_chars)] = i
ns_chars.append(c)
ns_text = "".join(ns_chars)
return (ns_text, ns_to_s_map)
# We first tokenize `orig_text`, strip whitespace from the result
# and `pred_text`, and check if they are the same length. If they are
# NOT the same length, the heuristic has failed. If they are the same
# length, we assume the characters are one-to-one aligned.
tokenizer = BasicTokenizer(do_lower_case=do_lower_case)
tok_text = " ".join(tokenizer.tokenize(orig_text))
start_position = tok_text.find(pred_text)
if start_position == -1:
if verbose_logging:
logger.info("Unable to find text: '%s' in '%s'" %
(pred_text, orig_text))
return orig_text
end_position = start_position + len(pred_text) - 1
(orig_ns_text, orig_ns_to_s_map) = _strip_spaces(orig_text)
(tok_ns_text, tok_ns_to_s_map) = _strip_spaces(tok_text)
if len(orig_ns_text) != len(tok_ns_text):
if verbose_logging:
logger.info(
"Length not equal after stripping spaces: '%s' vs '%s'",
orig_ns_text, tok_ns_text)
return orig_text
# We then project the characters in `pred_text` back to `orig_text` using
# the character-to-character alignment.
tok_s_to_ns_map = {}
for (i, tok_index) in tok_ns_to_s_map.items():
tok_s_to_ns_map[tok_index] = i
orig_start_position = None
if start_position in tok_s_to_ns_map:
ns_start_position = tok_s_to_ns_map[start_position]
if ns_start_position in orig_ns_to_s_map:
orig_start_position = orig_ns_to_s_map[ns_start_position]
if orig_start_position is None:
if verbose_logging:
logger.info("Couldn't map start position")
return orig_text
orig_end_position = None
if end_position in tok_s_to_ns_map:
ns_end_position = tok_s_to_ns_map[end_position]
if ns_end_position in orig_ns_to_s_map:
orig_end_position = orig_ns_to_s_map[ns_end_position]
if orig_end_position is None:
if verbose_logging:
logger.info("Couldn't map end position")
return orig_text
output_text = orig_text[orig_start_position:(orig_end_position + 1)]
return output_text
def _get_best_indexes(self, logits, n_best_size):
"""Get the n-best logits from a list."""
index_and_score = sorted(enumerate(logits),
key=lambda x: x[1],
reverse=True)
best_indexes = []
for i in range(len(index_and_score)):
if i >= n_best_size:
break
best_indexes.append(index_and_score[i][0])
return best_indexes
def _compute_softmax(self, scores):
"""Compute softmax probability over raw logits."""
if not scores:
return []
max_score = None
for score in scores:
if max_score is None or score > max_score:
max_score = score
exp_scores = []
total_sum = 0.0
for score in scores:
x = math.exp(score - max_score)
exp_scores.append(x)
total_sum += x
probs = []
for score in exp_scores:
probs.append(score / total_sum)
return probs
def get_answer(self, question, article):
if self.DO_PREDICT and (self.LOCAL_RANK == -1
or torch.distributed.get_rank() == 0):
def is_whitespace(c):
if c == " " or c == "\t" or c == "\r" or c == "\n" or ord(
c) == 0x202F:
return True
return False
doc_tokens = []
char_to_word_offset = []
prev_is_whitespace = True
for c in article:
if is_whitespace(c):
prev_is_whitespace = True
else:
if prev_is_whitespace:
doc_tokens.append(c)
else:
doc_tokens[-1] += c
prev_is_whitespace = False
char_to_word_offset.append(len(doc_tokens) - 1)
eval_examples = []
example = SquadExample(qas_id="1234",
question_text=question,
doc_tokens=doc_tokens,
orig_answer_text=None,
start_position=None,
end_position=None,
is_impossible=False)
eval_examples.append(example)
eval_features = self.convert_examples_to_features(
examples=eval_examples,
tokenizer=self.tokenizer,
max_seq_length=self.MAX_SEQ_LENGTH,
doc_stride=self.DOC_STRIDE,
max_query_length=self.MAX_QUERY_LENGTH,
is_training=False)
all_input_ids = torch.tensor([f.input_ids for f in eval_features],
dtype=torch.long)
all_input_mask = torch.tensor(
[f.input_mask for f in eval_features], dtype=torch.long)
all_segment_ids = torch.tensor(
[f.segment_ids for f in eval_features], dtype=torch.long)
all_example_index = torch.arange(all_input_ids.size(0),
dtype=torch.long)
eval_data = TensorDataset(all_input_ids, all_input_mask,
all_segment_ids, all_example_index)
# Run prediction for full data
eval_sampler = SequentialSampler(eval_data)
eval_dataloader = DataLoader(eval_data,
sampler=eval_sampler,
batch_size=self.PREDICT_BATCH_SIZE)
self.model.eval()
all_results = []
for input_ids, input_mask, segment_ids, example_indices in tqdm(
eval_dataloader, desc="Evaluating"):
input_ids = input_ids.to(self.device)
input_mask = input_mask.to(self.device)
segment_ids = segment_ids.to(self.device)
with torch.no_grad():
batch_start_logits, batch_end_logits = self.model(
input_ids, segment_ids, input_mask)
for i, example_index in enumerate(example_indices):
start_logits = batch_start_logits[i].detach().cpu().tolist(
)
end_logits = batch_end_logits[i].detach().cpu().tolist()
eval_feature = eval_features[example_index.item()]
unique_id = int(eval_feature.unique_id)
all_results.append(
self.RawResult(unique_id=unique_id,
start_logits=start_logits,
end_logits=end_logits))
output_prediction_file = os.path.join(self.OUTPUT_DIR,
"predictions.json")
output_nbest_file = os.path.join(self.OUTPUT_DIR,
"nbest_predictions.json")
output_null_log_odds_file = os.path.join(self.OUTPUT_DIR,
"null_odds.json")
return self.write_predictions(
eval_examples, eval_features, all_results, self.N_BEST_SIZE,
self.MAX_ANSWER_LENGTH, self.DO_LOWER_CASE,
output_prediction_file, output_nbest_file,
output_null_log_odds_file, self.VERBOSE_LOGGING,
self.VERSION_2_WITH_NEGATIVE, self.NULL_SCORE_DIFF_THRESHOLD)
